Cegma 2.4

CEGMA (Core Eukaryotic Genes Mapping Approach) is a pipeline for building a set of high reliable set of gene annotations in virtually any eukaryotic genome. The strategy relies on a simple fact: some highly conserved proteins are encoded in essentially all eukaryotic genomes.

Module file

The module file can be found in this location:

 /cm/shared/modulefiles/SHARED/

<source lang='tcl'>

1. %Module1.0#######################################################################
   1. cegma 2.4 modulefile

proc ModulesHelp { } {

       puts stderr "\tAdds cegma 2.4 to your environment"

}

module-whatis "Adds cegma 2.4 to your environment"

module load BLAST+/2.2.28 genewise/2.2.3-rc7 geneid/1.4.4 hmmer/3.1b1

setenv CEGMA /cm/shared/apps/SHARED/cegma/cegma_v2.4.010312/

set cegma_24_root /cm/shared/apps/SHARED/cegma_v2.4.010312/bin/ set cegma_24_perllib /cm/shared/apps/SHARED/cegma/cegma_v2.4.010312/lib/

prepend-path PATH $cegma_24_root prepend-path PERL5LIB $cegma_24_perllib

</source>

Installation details

Cegma was built from source, per the installation instructions provided.

See also

• Globally installed software
• ABGC specific modules
• BLAST+/2.2.28
• geneid/1.4.4
• genewise/2.2.3-rc7
• hmmer/3.1b1

External links

• CEGMA homepage at Korf Lab
• CEGMA README